[BioC] error in simpleaffy qc: I'm sorry, I do not know about chip type: poplarcdf

[Levi Waldron]

> library(simpleaffy)
> x <- read.affy("covdesc")
> x.mas5 <- call.exprs(x,"mas5")
Background correcting
Retrieving data from AffyBatch...done.
Computing expression calls...
......done.
scaling to a TGT of 100 ...
Scale factor for: bot0343.CEL 1.19431517356046
Scale factor for: bot0344.CEL 1.25599200206275
Scale factor for: bot0345.CEL 1.72226407855678
Scale factor for: bot0340.CEL 1.45162850888082
Scale factor for: bot0341.CEL 0.960621730495837
Scale factor for: bot0342.CEL 1.34367816094756

> qc <- qc(x,x.mas5)
Error in qc.affy(unnormalised, ...) : I'm sorry, I do not know about
chip type: poplarcdf

Note that in the sessionInfo() output below I have simpleaffy 2.4.2
which was installed by biocLite.  Afterwards I manually upgraded
simpleaffy to 2.6.0, which had no effect.

Any suggestions?



> cdfName(raw.data)
[1] "Poplar"

> sessionInfo()
Version 2.3.1 (2006-06-01)
i486-pc-linux-gnu

attached base packages:
[1] "splines"   "tools"     "methods"   "stats"     "graphics"  "grDevices"
[7] "utils"     "datasets"  "base"

other attached packages:
 poplarcdf simpleaffy genefilter   survival       affy     affyio    Biobase
  "1.12.0"    "2.4.2"   "1.10.1"     "2.26"   "1.10.0"    "1.0.0"   "1.10.1"

after upgrading simpleaffy:
> sessionInfo()
Version 2.3.1 (2006-06-01)
i486-pc-linux-gnu

attached base packages:
[1] "splines"   "tools"     "methods"   "stats"     "graphics"  "grDevices"
[7] "utils"     "datasets"  "base"

other attached packages:
 poplarcdf simpleaffy genefilter   survival       affy     affyio    Biobase
  "1.12.0"    "2.6.0"   "1.10.1"     "2.26"   "1.10.0"    "1.0.0"   "1.10.1"